[Home] | [Total List]

[175395_at]

Description AU113819_rc /REP_DB=TREMBL Accession /GB=AU113819 /CHR=5 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk712a1 : 3prime end, single read.
Cluster 6grp_total > 54      4grp_total > 07      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 14
1 2 3 4 range
A 0.8
(-3)
A 		1.1
(-2.8)
A 		8.2
(3)
A 		4
(-0.4)
A 		7
B 15
(3)
A 		1.6
(-2.9)
A 		3.2
(-2.2)
A 		1.3
(-3)
A 		14
C 0.8
(-3)
A 		1.5
(-2.3)
A 		2.2
(-1.6)
A 		6.7
(3)
A 		6
avr 5.5
(3) 		1.4
(-3) 		4.5
(1.5) 		4
(0.8) 		4

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 3.2
(-2.2)
A 		0.5
(-3)
A 		20.3
(3)
A 		2
(-2.5)
A 		1.7
(-2.6)
A 		10
(-0.1)
A 		20
B 2.1
(-1.5)
A 		3.6
(0.3)
A 		0.8
(-3)
A 		1.2
(-2.5)
A 		1.4
(-2.3)
A 		5.9
(3)
A 		5
C 1.4
(-3)
A 		1.5
(-3)
A 		15.7
(3)
A 		2.3
(-2.6)
A 		1.7
(-2.9)
A 		1.7
(-2.9)
A 		14
avr 2.2
(-2.7) 		1.9
(-2.8) 		12.3
(3) 		1.8
(-2.9) 		1.6
(-3) 		5.9
(-0.6) 		11
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 5
1 2 3 4 range
A 0.3
(-2.7)
A 		0.2
(-3)
A 		2.1
(3)
A 		0.6
(-1.7)
A 		2
B 4.8
(3)
A 		0.4
(-2.9)
A 		0.7
(-2.5)
A 		0.3
(-3)
A 		5
C 0.3
(-3)
A 		0.4
(-2.3)
A 		0.8
(0.8)
A 		1.1
(3)
A 		1
avr 1.8
(3) 		0.3
(-3) 		1.2
(0.6) 		0.7
(-1.4) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 4
1 2 3 4 5 6 range
A 0.6
(-2.4)
A 		0.2
(-3)
A 		4.4
(3)
A 		0.5
(-2.6)
A 		0.5
(-2.6)
A 		2.4
(0.1)
A 		4
B 0.7
(-1.5)
A 		1.2
(0)
A 		0.2
(-3)
A 		0.3
(-2.7)
A 		0.6
(-1.8)
A 		2.2
(3)
A 		2
C 0.5
(-3)
A 		0.5
(-3)
A 		4
(3)
A 		0.5
(-3)
A 		0.6
(-2.8)
A 		0.6
(-2.8)
A 		4
avr 0.6
(-2.5) 		0.6
(-2.5) 		2.9
(3) 		0.4
(-3) 		0.6
(-2.5) 		1.7
(0.1) 		3
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175395_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.21795
Sequence Type Exemplar sequence
Representative Public ID AU113819 NCBI
Target Description AU113819_rc /REP_DB=TREMBL Accession /GB=AU113819 /CHR=5 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk712a1 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
Annotation Method Description
Annotation Description Only library file information is available for this probe set. See probe design information above.
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
SNAP00000035780 ENSEMBL cdna:SNAP chromosome:CEL140:V:6070410:6070715:-1 11/11 None
GENEFINDER00000035787 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:6070410:6074559:-1 11/11 None
Y38A10A.4 ENSEMBL cdna:known chromosome:CEL140:V:6070405:6072719:-1 gene:Y38A10A.4 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrV:6070414-6070695(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y38A10A.4
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAD14745 Hypothetical protein Y38A10A.4 [Caenorhabditis elegans] ref|NP_504572.1| Y38A10A.4 [Caenorhabditis elegans] 1.0E-166
blast AAD14745 Hypothetical protein Y38A10A.4 [Caenorhabditis elegans] ref|NP_504572.1| Y38A10A.4 [Caenorhabditis elegans] 1.0E-161
blast NP_503412 R09B5.1 [Caenorhabditis elegans] gb|AAB94210.1| Hypothetical protein R09B5.1 [Caenorhabditis elegans] 9.0E-53
blast NP_503412 R09B5.1 [Caenorhabditis elegans] gb|AAB94210.1| Hypothetical protein R09B5.1 [Caenorhabditis elegans] 4.0E-52
blast NP_500676 Y9C9A.8 [Caenorhabditis elegans] gb|AAF60932.1| Hypothetical protein Y9C9A.8 [Caenorhabditis elegans] 6.0E-26
blast NP_500676 Y9C9A.8 [Caenorhabditis elegans] gb|AAF60932.1| Hypothetical protein Y9C9A.8 [Caenorhabditis elegans] 1.0E-19
Protein Domains
Database ID Description E-Value
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 4.3E-13
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 2.3E-7
Pfam IPR002900 EMBL-EBI Protein of unknown function DUF38 8.5E-20
Pfam IPR001810 EMBL-EBI Cyclin-like F-box 2.3E-7
Pfam IPR008164 EMBL-EBI Repeat of unknown function XGLTT 1.9E-8
Pfam IPR008164 EMBL-EBI Repeat of unknown function XGLTT 1.1E-7
Pfam IPR008164 EMBL-EBI Repeat of unknown function XGLTT 1.6E-8
Trans Membrane
ID Number Of Domains Domain Boundaries
GENEFINDER00000035787 3 7-26,36-58,71-93
Sequence
Target Sequence 
>C. ELEGANS:175395_AT
attccaaacccgagtgaaatcgccggtatctttggccaaactagtgtacattctggagct
tcagacgttggtagtaatcttgccattgatttcgacgttggaattgatatggattttttg
gcggaagataatgaagaagatgaagataactccgatgaatcaaacgacaatgctatttac
aaagctagtttgcatactaacgaggacgaattcatcgtagtcgtctgtcaaa

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATTCCAAACCCGAGTGAAATCGCCG 376 7 14 Antisense
GAAATCGCCGGTATCTTTGGCCAAA 650 361 29 Antisense
TTTGGCCAAACTAGTGTACATTCTG 45 661 44 Antisense
ACATTCTGGAGCTTCAGACGTTGGT 269 105 61 Antisense
AGACGTTGGTAGTAATCTTGCCATT 470 71 76 Antisense
TCTTGCCATTGATTTCGACGTTGGA 91 619 91 Antisense
ATTGATATGGATTTTTTGGCGGAAG 216 5 116 Antisense
ATAACTCCGATGAATCAAACGACAA 542 23 159 Antisense
GAATCAAACGACAATGCTATTTACA 210 327 170 Antisense
GCATACTAACGAGGACGAATTCATC 516 307 205 Antisense
GAATTCATCGTAGTCGTCTGTCAAA 200 325 221 Antisense
Sequence Source Affymetrix Proprietary Database